GSM5253860: 501-ARID2KO-1-8; Homo sapiens; ChIP-Seq
Sample information curated by ChIP-Atlas
Antigen
Antigen Class
TFs and others
Antigen
SS18
Cell type
Cell type Class
Epidermis
Cell type
501A
Primary Tissue
Skin
Tissue Diagnosis
Melanoma
Attributes by original data submitter
Sample
source_name
501mel ARID2 KO
construct
Lenti-CRISPR V2 Cas9 + sgRNA
disease state
metastatic melanoma
melanoma molecular subtype
BRAFV600E
antibody
SS18 - Cell Signaling #21792 D6I4Z
Sequenced DNA Library
library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
XL ChIP-seq: For ARID2, SS18, BRG1, TEAD4, FOSL2, CTCF, and MITF cells were cross-linked with 2 mM disuccinimidyl glutarate (DSG, Pierce 20593) in PBS for 45 min followed by 1% FA for 10 min at RT. For H3K27ac and H3K27me3 cells were cross-linked with 1% FA for 10 min at RT. ChIP was performed as previously described (Fontanals-Cirera B, Hasson D, Vardabasso C, Di Micco R et al. Harnessing BET Inhibitor Sensitivity Reveals AMIGO2 as a Melanoma Survival Gene. Mol Cell 2017 Nov 16;68(4):731-744.e9) ChIP-seq: Libraries for ChIP-seq were done as previously described (Fontanals-Cirera B, Hasson D, Vardabasso C, Di Micco R et al. Harnessing BET Inhibitor Sensitivity Reveals AMIGO2 as a Melanoma Survival Gene. Mol Cell 2017 Nov 16;68(4):731-744.e9) ATAC-seq: For all ATAC-seq libraries, 50k cells were harvested, tagmented with 2.5-5uL Nextera Tn5 Transposes from nextera for 30 min, amplified up to 10 cycles and purified essentially as previously described in ATAC protocols. Purified libraries were then size selected on 2% agarose gel (150-700bp).